Locus 113

Sequence ID 2L_DroMel_CAF1
Location 372,747 – 372,867
Length 120
Max. P 0.964424
window167 window168

overview

Window 7

Location 372,747 – 372,867
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.83
Mean single sequence MFE -31.88
Consensus MFE -27.88
Energy contribution -27.68
Covariance contribution -0.20
Combinations/Pair 1.08
Mean z-score -1.70
Structure conservation index 0.87
SVM decision value 1.57
SVM RNA-class probability 0.964424
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 372747 120 + 22407834
UCGGGCUGUUGAUGAACUCAUUUGUCAAUGUCGCCUUCCCGACUUUCGGACCUGGCAUCCUCUUGAAGAUCUGCCUCCGAGGUAACCCCAGCCCAUCUAUUUAAUUACCAAUAUAUGUUG
..((((((((((..((....))..)))).((..((((.(((.....)))....((((...((.....))..))))...))))..))..)))))).......................... ( -31.00)
>DroSec_CAF1 40408 119 + 1
UCGGGCUGUUGAUGAACUCAUUUGUCAAUGUCGCCUUCCCGACUUUCGGACCUGGCAUCCUCUUGAAGAUCUGCCUCCGAGGUAACCCCAGCCCAUCUAUUUAA-UACCAAUAUAUGUUG
..((((((((((..((....))..)))).((..((((.(((.....)))....((((...((.....))..))))...))))..))..))))))..........-............... ( -31.00)
>DroSim_CAF1 41078 120 + 1
UCGGGCUGUUGAUGAACUCAUUUGUCAAUGUCGCCUUCCCGACUUUCGGACCUGGCAUCCUCUUGAAGAUCUGCCUCCGAGGUAACCCCAGCCCAUCUAUUUAAUUACCAAUAUAUGUUG
..((((((((((..((....))..)))).((..((((.(((.....)))....((((...((.....))..))))...))))..))..)))))).......................... ( -31.00)
>DroEre_CAF1 46972 120 + 1
UCGGGCUGUUGAUGAACUCAUUUGUCAAUGUCGCCUUGCCGACUUUCGGACUCGGCGUCCUCUCGAAGAUCUCCCUCCGAGGCAAGCUCAGCCCAUCCAUUUAAUUACCAAUAUAUGUUG
..((((((((((..((....))..))))....((.(((((.......((((.....))))..(((.((......)).)))))))))).)))))).......................... ( -33.60)
>DroYak_CAF1 41643 120 + 1
UCGGGCUGUUGAUGAACUCAUUUGUCAACGUCGCCUUGCCGACUUUCGGACGCGGCCUCCUCCCGAAGAUCUCCCUCUGAGGUAACCUCAGCCCAUCCAUUUAAUUACCAAUAUAUGUUG
(((((..(((((..((....))..)))))(((((....(((.....)))..))))).....)))))..........((((((...))))))............................. ( -32.80)
>consensus
UCGGGCUGUUGAUGAACUCAUUUGUCAAUGUCGCCUUCCCGACUUUCGGACCUGGCAUCCUCUUGAAGAUCUGCCUCCGAGGUAACCCCAGCCCAUCUAUUUAAUUACCAAUAUAUGUUG
..((((((((((..((....))..))))....(((...(((.....)))....)))....(((((.((......)).)))))......)))))).......................... (-27.88 = -27.68 +  -0.20) 

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 372,747 – 372,867
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.83
Mean single sequence MFE -35.52
Consensus MFE -32.14
Energy contribution -32.66
Covariance contribution 0.52
Combinations/Pair 1.07
Mean z-score -1.31
Structure conservation index 0.90
SVM decision value 0.68
SVM RNA-class probability 0.820612
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 372747 120 - 22407834
CAACAUAUAUUGGUAAUUAAAUAGAUGGGCUGGGGUUACCUCGGAGGCAGAUCUUCAAGAGGAUGCCAGGUCCGAAAGUCGGGAAGGCGACAUUGACAAAUGAGUUCAUCAACAGCCCGA
.........................(((((((..((((((((.((((.....))))..)))).((((...((((.....))))..))))....))))...(((.....))).))))))). ( -34.00)
>DroSec_CAF1 40408 119 - 1
CAACAUAUAUUGGUA-UUAAAUAGAUGGGCUGGGGUUACCUCGGAGGCAGAUCUUCAAGAGGAUGCCAGGUCCGAAAGUCGGGAAGGCGACAUUGACAAAUGAGUUCAUCAACAGCCCGA
...............-.........(((((((..((((((((.((((.....))))..)))).((((...((((.....))))..))))....))))...(((.....))).))))))). ( -34.00)
>DroSim_CAF1 41078 120 - 1
CAACAUAUAUUGGUAAUUAAAUAGAUGGGCUGGGGUUACCUCGGAGGCAGAUCUUCAAGAGGAUGCCAGGUCCGAAAGUCGGGAAGGCGACAUUGACAAAUGAGUUCAUCAACAGCCCGA
.........................(((((((..((((((((.((((.....))))..)))).((((...((((.....))))..))))....))))...(((.....))).))))))). ( -34.00)
>DroEre_CAF1 46972 120 - 1
CAACAUAUAUUGGUAAUUAAAUGGAUGGGCUGAGCUUGCCUCGGAGGGAGAUCUUCGAGAGGACGCCGAGUCCGAAAGUCGGCAAGGCGACAUUGACAAAUGAGUUCAUCAACAGCCCGA
...(((.((........)).)))..(((((((.......((((((((....)))))))).(((((((..(.(((.....))))..)))..((((....)))).)))).....))))))). ( -39.20)
>DroYak_CAF1 41643 120 - 1
CAACAUAUAUUGGUAAUUAAAUGGAUGGGCUGAGGUUACCUCAGAGGGAGAUCUUCGGGAGGAGGCCGCGUCCGAAAGUCGGCAAGGCGACGUUGACAAAUGAGUUCAUCAACAGCCCGA
...(((.((........)).)))..(((((((.(((..((((.((((.....))))..))))..)))..(((.....((((......))))...)))...(((.....))).))))))). ( -36.40)
>consensus
CAACAUAUAUUGGUAAUUAAAUAGAUGGGCUGGGGUUACCUCGGAGGCAGAUCUUCAAGAGGAUGCCAGGUCCGAAAGUCGGGAAGGCGACAUUGACAAAUGAGUUCAUCAACAGCCCGA
.........................(((((((..((((((((.((((.....))))..)))).((((...((((.....))))..))))....))))...(((.....))).))))))). (-32.14 = -32.66 +   0.52) 

alignment

Postscript

secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:26:11 2006